HsaINT0084713 @ hg38
Intron Retention
Gene
ENSG00000107147 | KCNT1
Description
potassium sodium-activated channel subfamily T member 1 [Source:HGNC Symbol;Acc:HGNC:18865]
Coordinates
chr9:135784535-135784889:+
Coord C1 exon
chr9:135784535-135784618
Coord A exon
chr9:135784619-135784760
Coord C2 exon
chr9:135784761-135784889
Length
142 bp
Sequences
Splice sites
5' ss Seq
GCCGTAAGT
5' ss Score
10.11
3' ss Seq
TCAGGGTTCCCACCCTGCAGATG
3' ss Score
7.58
Exon sequences
Seq C1 exon
TCCTTCGTGAAGGACTACATGATCACCATCACCCGGCTGCTGCTGGGCCTGGACACCACGCCGGGCTCGGGGTACCTCTGTGCC
Seq A exon
GTAAGTGCCCCTGGCTGCGCTGGGCTGGGGGCGTGCTGGGCTGTCCAAGTGGGTGGATGGGCACCTGCCCCTGATTCACGGTGGCCAGGAGGCTCTGGGTGCTGCCACCTGCCCCAGCCAACTCAGGGTTCCCACCCTGCAG
Seq C2 exon
ATGAAAATCACCGAGGGCGACCTGTGGATCCGCACGTACGGCCGCCTCTTCCAGAAGCTCTGCTCCTCCAGCGCCGAGATCCCCATTGGCATCTACCGGACAGAGAGCCACGTCTTCTCCACCTCGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000107147:ENST00000628528:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.021
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCGTGAAGGACTACATGATCACC
R:
TCCGAGGTGGAGAAGACGTG
Band lengths:
210-352
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development